mouseBrainParcellation: Mouse brain parcellation

In ANTsX/ANTsRNet: Neural Networks for Medical Image Processing

Mouse brain parcellation

Description

Perform brain extraction of mouse T2 MRI

Usage

mouseBrainParcellation(
  image,
  mask = NULL,
  returnIsotropicOutput = FALSE,
  whichParcellation = c("nick", "jay", "tct"),
  verbose = FALSE
)

Arguments

image	input 3-D brain image (or list of images for multi-modal scenarios).
mask	Brain mask. If not specified, one is estimated using ANTsXNet mouse brain extraction.
returnIsotropicOutput	The network actually learns an interpolating function specific to the mouse brain. Setting this to true, the output images are returned isotropically resampled.
whichParcellation	Brain parcellation type: "nick": Label 0:background Label 1:cerebral cortex Label 2:cerebral nuclei Label 3:brain stem Label 4:cerebellum Label 5:main olfactory bulb Label 6:hippocampal formation "tct": Label 0: Label 1:background Label 2:Infralimbic area Label 3:Prelimbic area Label 4:Medial group of the dorsal thalamus Label 5:Reticular nucleus of the thalamus Label 6:Hippocampal formation Label 7:Cerebellum "jay": Label 0:background Label 1: Label 2: Label 3: Label 4:
verbose	print progress.

Value

brain probability mask

Author(s)

Tustison NJ

Examples

## Not run: 
library( ANTsRNet )
library( keras )

image <- antsImageRead( "brain.nii.gz" )
parcellation <- mouseBrainParcellation( image, modality = "t2" )

## End(Not run)

ANTsX/ANTsRNet documentation built on Nov. 21, 2024, 4:07 a.m.